[{"volume":66,"date_created":"2019-08-04T21:59:16Z","date_updated":"2023-08-29T07:02:13Z","related_material":{"record":[{"id":"950","status":"public","relation":"earlier_version"}]},"author":[{"full_name":"Avni, Guy","first_name":"Guy","last_name":"Avni","id":"463C8BC2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5588-8287"},{"last_name":"Henzinger","first_name":"Thomas A","orcid":"0000−0002−2985−7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","full_name":"Henzinger, Thomas A"},{"full_name":"Chonev, Ventsislav K","first_name":"Ventsislav K","last_name":"Chonev","id":"36CBE2E6-F248-11E8-B48F-1D18A9856A87"}],"publisher":"ACM","department":[{"_id":"ToHe"}],"publication_status":"published","year":"2019","article_number":"31","language":[{"iso":"eng"}],"doi":"10.1145/3340295","project":[{"_id":"25F42A32-B435-11E9-9278-68D0E5697425","grant_number":"Z211","call_identifier":"FWF","name":"The Wittgenstein Prize"},{"name":"Rigorous Systems Engineering","call_identifier":"FWF","grant_number":"S11402-N23","_id":"25F2ACDE-B435-11E9-9278-68D0E5697425"},{"name":"Formal Methods meets Algorithmic Game Theory","call_identifier":"FWF","grant_number":"M02369","_id":"264B3912-B435-11E9-9278-68D0E5697425"}],"isi":1,"quality_controlled":"1","main_file_link":[{"url":"https://arxiv.org/abs/1705.01433","open_access":"1"}],"oa":1,"external_id":{"isi":["000487714900008"],"arxiv":["1705.01433"]},"publication_identifier":{"eissn":["1557735X"],"issn":["00045411"]},"month":"07","oa_version":"Preprint","intvolume":" 66","title":"Infinite-duration bidding games","status":"public","_id":"6752","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","issue":"4","abstract":[{"lang":"eng","text":"Two-player games on graphs are widely studied in formal methods, as they model the interaction between a system and its environment. The game is played by moving a token throughout a graph to produce an infinite path. There are several common modes to determine how the players move the token through the graph; e.g., in turn-based games the players alternate turns in moving the token. We study the bidding mode of moving the token, which, to the best of our knowledge, has never been studied in infinite-duration games. The following bidding rule was previously defined and called Richman bidding. Both players have separate budgets, which sum up to 1. In each turn, a bidding takes place: Both players submit bids simultaneously, where a bid is legal if it does not exceed the available budget, and the higher bidder pays his bid to the other player and moves the token. The central question studied in bidding games is a necessary and sufficient initial budget for winning the game: a threshold budget in a vertex is a value t ∈ [0, 1] such that if Player 1’s budget exceeds t, he can win the game; and if Player 2’s budget exceeds 1 − t, he can win the game. Threshold budgets were previously shown to exist in every vertex of a reachability game, which have an interesting connection with random-turn games—a sub-class of simple stochastic games in which the player who moves is chosen randomly. We show the existence of threshold budgets for a qualitative class of infinite-duration games, namely parity games, and a quantitative class, namely mean-payoff games. The key component of the proof is a quantitative solution to strongly connected mean-payoff bidding games in which we extend the connection with random-turn games to these games, and construct explicit optimal strategies for both players."}],"type":"journal_article","date_published":"2019-07-16T00:00:00Z","citation":{"apa":"Avni, G., Henzinger, T. A., & Chonev, V. K. (2019). Infinite-duration bidding games. Journal of the ACM. ACM. https://doi.org/10.1145/3340295","ieee":"G. Avni, T. A. Henzinger, and V. K. Chonev, “Infinite-duration bidding games,” Journal of the ACM, vol. 66, no. 4. ACM, 2019.","ista":"Avni G, Henzinger TA, Chonev VK. 2019. Infinite-duration bidding games. Journal of the ACM. 66(4), 31.","ama":"Avni G, Henzinger TA, Chonev VK. Infinite-duration bidding games. Journal of the ACM. 2019;66(4). doi:10.1145/3340295","chicago":"Avni, Guy, Thomas A Henzinger, and Ventsislav K Chonev. “Infinite-Duration Bidding Games.” Journal of the ACM. ACM, 2019. https://doi.org/10.1145/3340295.","short":"G. Avni, T.A. Henzinger, V.K. Chonev, Journal of the ACM 66 (2019).","mla":"Avni, Guy, et al. “Infinite-Duration Bidding Games.” Journal of the ACM, vol. 66, no. 4, 31, ACM, 2019, doi:10.1145/3340295."},"publication":"Journal of the ACM","article_processing_charge":"No","day":"16","scopus_import":"1"},{"oa":1,"external_id":{"isi":["000535353000023"]},"main_file_link":[{"url":"https://hal.archives-ouvertes.fr/hal-02368135/file/110760V.pdf","open_access":"1"}],"isi":1,"quality_controlled":"1","doi":"10.1117/12.2527058","conference":{"location":"Munich, Germany","start_date":"2019-06-26","end_date":"2019-06-27","name":"European Conferences on Biomedical Optics"},"language":[{"iso":"eng"}],"publication_identifier":{"issn":["1605-7422"],"isbn":["9781510628458"]},"month":"07","year":"2019","publisher":"SPIE","department":[{"_id":"MaLo"}],"publication_status":"published","author":[{"last_name":"Davies","first_name":"Heather S.","full_name":"Davies, Heather S."},{"full_name":"Baranova, Natalia S.","last_name":"Baranova","first_name":"Natalia S.","orcid":"0000-0002-3086-9124","id":"38661662-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Nouha","last_name":"El Amri","full_name":"El Amri, Nouha"},{"full_name":"Coche-Guérente, Liliane","first_name":"Liliane","last_name":"Coche-Guérente"},{"full_name":"Verdier, Claude","last_name":"Verdier","first_name":"Claude"},{"full_name":"Bureau, Lionel","first_name":"Lionel","last_name":"Bureau"},{"full_name":"Richter, Ralf P.","first_name":"Ralf P.","last_name":"Richter"},{"last_name":"Débarre","first_name":"Delphine","full_name":"Débarre, Delphine"}],"volume":11076,"date_created":"2019-11-12T15:10:18Z","date_updated":"2023-08-29T06:54:38Z","article_number":"110760V","citation":{"short":"H.S. Davies, N.S. Baranova, N. El Amri, L. Coche-Guérente, C. Verdier, L. Bureau, R.P. Richter, D. Débarre, in:, Advances in Microscopic Imaging II, SPIE, 2019.","mla":"Davies, Heather S., et al. “Blood Cell-Vessel Wall Interactions Probed by Reflection Interference Contrast Microscopy.” Advances in Microscopic Imaging II, vol. 11076, 110760V, SPIE, 2019, doi:10.1117/12.2527058.","chicago":"Davies, Heather S., Natalia S. Baranova, Nouha El Amri, Liliane Coche-Guérente, Claude Verdier, Lionel Bureau, Ralf P. Richter, and Delphine Débarre. “Blood Cell-Vessel Wall Interactions Probed by Reflection Interference Contrast Microscopy.” In Advances in Microscopic Imaging II, Vol. 11076. SPIE, 2019. https://doi.org/10.1117/12.2527058.","ama":"Davies HS, Baranova NS, El Amri N, et al. Blood cell-vessel wall interactions probed by reflection interference contrast microscopy. In: Advances in Microscopic Imaging II. Vol 11076. SPIE; 2019. doi:10.1117/12.2527058","ieee":"H. S. Davies et al., “Blood cell-vessel wall interactions probed by reflection interference contrast microscopy,” in Advances in Microscopic Imaging II, Munich, Germany, 2019, vol. 11076.","apa":"Davies, H. S., Baranova, N. S., El Amri, N., Coche-Guérente, L., Verdier, C., Bureau, L., … Débarre, D. (2019). Blood cell-vessel wall interactions probed by reflection interference contrast microscopy. In Advances in Microscopic Imaging II (Vol. 11076). Munich, Germany: SPIE. https://doi.org/10.1117/12.2527058","ista":"Davies HS, Baranova NS, El Amri N, Coche-Guérente L, Verdier C, Bureau L, Richter RP, Débarre D. 2019. Blood cell-vessel wall interactions probed by reflection interference contrast microscopy. Advances in Microscopic Imaging II. European Conferences on Biomedical Optics vol. 11076, 110760V."},"publication":"Advances in Microscopic Imaging II","date_published":"2019-07-22T00:00:00Z","scopus_import":"1","article_processing_charge":"No","day":"22","_id":"7010","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 11076","title":"Blood cell-vessel wall interactions probed by reflection interference contrast microscopy","status":"public","oa_version":"Published Version","type":"conference","abstract":[{"text":"Numerous biophysical questions require the quantification of short-range interactions between (functionalized) surfaces and synthetic or biological objects such as cells. Here, we present an original, custom built setup for reflection interference contrast microscopy that can assess distances between a substrate and a flowing object at high speed with nanometric accuracy. We demonstrate its use to decipher the complex biochemical and mechanical interplay regulating blood cell homing at the vessel wall in the microcirculation using an in vitro approach. We show that in the absence of specific biochemical interactions, flowing cells are repelled from the soft layer lining the vessel wall, contributing to red blood cell repulsion in vivo. In contrast, this so-called glycocalyx stabilizes rolling of cells under flow in the presence of a specific receptor naturally present on activated leucocytes and a number of cancer cell lines.","lang":"eng"}]},{"article_processing_charge":"No","day":"15","scopus_import":"1","date_published":"2019-07-15T00:00:00Z","page":"5804-5809","article_type":"original","citation":{"apa":"Khattak, H. K., Waitukaitis, S. R., & Slepkov, A. D. (2019). Microwave induced mechanical activation of hydrogel dimers. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c9sm00756c","ieee":"H. K. Khattak, S. R. Waitukaitis, and A. D. Slepkov, “Microwave induced mechanical activation of hydrogel dimers,” Soft Matter, vol. 15, no. 29. Royal Society of Chemistry, pp. 5804–5809, 2019.","ista":"Khattak HK, Waitukaitis SR, Slepkov AD. 2019. Microwave induced mechanical activation of hydrogel dimers. Soft Matter. 15(29), 5804–5809.","ama":"Khattak HK, Waitukaitis SR, Slepkov AD. Microwave induced mechanical activation of hydrogel dimers. Soft Matter. 2019;15(29):5804-5809. doi:10.1039/c9sm00756c","chicago":"Khattak, Hamza K., Scott R Waitukaitis, and Aaron D. Slepkov. “Microwave Induced Mechanical Activation of Hydrogel Dimers.” Soft Matter. Royal Society of Chemistry, 2019. https://doi.org/10.1039/c9sm00756c.","short":"H.K. Khattak, S.R. Waitukaitis, A.D. Slepkov, Soft Matter 15 (2019) 5804–5809.","mla":"Khattak, Hamza K., et al. “Microwave Induced Mechanical Activation of Hydrogel Dimers.” Soft Matter, vol. 15, no. 29, Royal Society of Chemistry, 2019, pp. 5804–09, doi:10.1039/c9sm00756c."},"publication":"Soft Matter","issue":"29","abstract":[{"lang":"eng","text":"When grape-sized aqueous dimers are irradiated in a microwave oven, an intense electromagnetic hotspot forms at their point of contact, often igniting a plasma. Here we show that this irradiation can result in the injection of mechanical energy. By examining irradiated hydrogel dimers through high-speed imaging, we find that they repeatedly bounce off of each other while irradiated. We determine that an average of 1 lJ of mechanical energy is injected into the pair during each collision. Furthermore, a characteristic high-pitched audio signal is found to accompany each collision.\r\nWe show that both the audio signal and the energy injection arise via an interplay between vaporization and elastic deformations in the region of contact, the so-called ‘elastic Liedenfrost effect’. Our results establish a novel, non-contact method of injecting mechanical energy into soft matter systems, suggesting application in fields such as soft robotics."}],"type":"journal_article","oa_version":"None","intvolume":" 15","title":"Microwave induced mechanical activation of hydrogel dimers","status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6763","publication_identifier":{"eissn":["17446848"],"issn":["1744683X"]},"month":"07","language":[{"iso":"eng"}],"doi":"10.1039/c9sm00756c","isi":1,"quality_controlled":"1","external_id":{"isi":["000476909200002"],"pmid":["31305853"]},"volume":15,"date_updated":"2023-08-29T06:53:34Z","date_created":"2019-08-04T21:59:21Z","author":[{"full_name":"Khattak, Hamza K.","first_name":"Hamza K.","last_name":"Khattak"},{"last_name":"Waitukaitis","first_name":"Scott R","orcid":"0000-0002-2299-3176","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","full_name":"Waitukaitis, Scott R"},{"first_name":"Aaron D.","last_name":"Slepkov","full_name":"Slepkov, Aaron D."}],"department":[{"_id":"ScWa"}],"publisher":"Royal Society of Chemistry","publication_status":"published","pmid":1,"year":"2019"},{"author":[{"orcid":"0000-0003-1615-3282","id":"4A245D00-F248-11E8-B48F-1D18A9856A87","last_name":"Ruess","first_name":"Jakob","full_name":"Ruess, Jakob"},{"first_name":"Maros","last_name":"Pleska","id":"4569785E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7460-7479","full_name":"Pleska, Maros"},{"full_name":"Guet, Calin C","first_name":"Calin C","last_name":"Guet","id":"47F8433E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6220-2052"},{"full_name":"Tkačik, Gašper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6699-1455","first_name":"Gašper","last_name":"Tkačik"}],"related_material":{"record":[{"id":"9786","status":"public","relation":"research_data"}]},"date_created":"2019-08-11T21:59:19Z","date_updated":"2023-08-29T07:10:06Z","volume":15,"year":"2019","publication_status":"published","publisher":"Public Library of Science","department":[{"_id":"CaGu"},{"_id":"GaTk"}],"file_date_updated":"2020-07-14T12:47:40Z","article_number":"e1007168","doi":"10.1371/journal.pcbi.1007168","language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000481577700032"]},"oa":1,"quality_controlled":"1","isi":1,"project":[{"grant_number":"24210","_id":"251D65D8-B435-11E9-9278-68D0E5697425","name":"Effects of Stochasticity on the Function of Restriction-Modi cation Systems at the Single-Cell Level"},{"name":"Multi-Level Conflicts in Evolutionary Dynamics of Restriction-Modification Systems","_id":"251BCBEC-B435-11E9-9278-68D0E5697425","grant_number":"RGY0079/2011"}],"month":"07","publication_identifier":{"eissn":["1553-7358"]},"file":[{"relation":"main_file","file_id":"6803","date_created":"2019-08-12T12:27:26Z","date_updated":"2020-07-14T12:47:40Z","checksum":"7ded4721b41c2a0fc66a1c634540416a","file_name":"2019_PlosComputBiology_Ruess.pdf","access_level":"open_access","file_size":2200003,"content_type":"application/pdf","creator":"dernst"}],"oa_version":"Published Version","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6784","ddc":["570"],"title":"Molecular noise of innate immunity shapes bacteria-phage ecologies","status":"public","intvolume":" 15","abstract":[{"lang":"eng","text":"Mathematical models have been used successfully at diverse scales of biological organization, ranging from ecology and population dynamics to stochastic reaction events occurring between individual molecules in single cells. Generally, many biological processes unfold across multiple scales, with mutations being the best studied example of how stochasticity at the molecular scale can influence outcomes at the population scale. In many other contexts, however, an analogous link between micro- and macro-scale remains elusive, primarily due to the challenges involved in setting up and analyzing multi-scale models. Here, we employ such a model to investigate how stochasticity propagates from individual biochemical reaction events in the bacterial innate immune system to the ecology of bacteria and bacterial viruses. We show analytically how the dynamics of bacterial populations are shaped by the activities of immunity-conferring enzymes in single cells and how the ecological consequences imply optimal bacterial defense strategies against viruses. Our results suggest that bacterial populations in the presence of viruses can either optimize their initial growth rate or their population size, with the first strategy favoring simple immunity featuring a single restriction modification system and the second strategy favoring complex bacterial innate immunity featuring several simultaneously active restriction modification systems."}],"issue":"7","type":"journal_article","date_published":"2019-07-02T00:00:00Z","publication":"PLoS Computational Biology","citation":{"chicago":"Ruess, Jakob, Maros Pleska, Calin C Guet, and Gašper Tkačik. “Molecular Noise of Innate Immunity Shapes Bacteria-Phage Ecologies.” PLoS Computational Biology. Public Library of Science, 2019. https://doi.org/10.1371/journal.pcbi.1007168.","short":"J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, PLoS Computational Biology 15 (2019).","mla":"Ruess, Jakob, et al. “Molecular Noise of Innate Immunity Shapes Bacteria-Phage Ecologies.” PLoS Computational Biology, vol. 15, no. 7, e1007168, Public Library of Science, 2019, doi:10.1371/journal.pcbi.1007168.","ieee":"J. Ruess, M. Pleska, C. C. Guet, and G. Tkačik, “Molecular noise of innate immunity shapes bacteria-phage ecologies,” PLoS Computational Biology, vol. 15, no. 7. Public Library of Science, 2019.","apa":"Ruess, J., Pleska, M., Guet, C. C., & Tkačik, G. (2019). Molecular noise of innate immunity shapes bacteria-phage ecologies. PLoS Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1007168","ista":"Ruess J, Pleska M, Guet CC, Tkačik G. 2019. Molecular noise of innate immunity shapes bacteria-phage ecologies. PLoS Computational Biology. 15(7), e1007168.","ama":"Ruess J, Pleska M, Guet CC, Tkačik G. Molecular noise of innate immunity shapes bacteria-phage ecologies. PLoS Computational Biology. 2019;15(7). doi:10.1371/journal.pcbi.1007168"},"article_type":"original","day":"02","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1"},{"article_processing_charge":"No","has_accepted_license":"1","day":"02","scopus_import":"1","date_published":"2019-08-02T00:00:00Z","citation":{"short":"Y. Zhang, G. Xiao, X. Wang, X. Zhang, J. Friml, Nature Communications 10 (2019).","mla":"Zhang, Yuzhou, et al. “Evolution of Fast Root Gravitropism in Seed Plants.” Nature Communications, vol. 10, 3480, Springer Nature, 2019, doi:10.1038/s41467-019-11471-8.","chicago":"Zhang, Yuzhou, G Xiao, X Wang, Xixi Zhang, and Jiří Friml. “Evolution of Fast Root Gravitropism in Seed Plants.” Nature Communications. Springer Nature, 2019. https://doi.org/10.1038/s41467-019-11471-8.","ama":"Zhang Y, Xiao G, Wang X, Zhang X, Friml J. Evolution of fast root gravitropism in seed plants. Nature Communications. 2019;10. doi:10.1038/s41467-019-11471-8","apa":"Zhang, Y., Xiao, G., Wang, X., Zhang, X., & Friml, J. (2019). Evolution of fast root gravitropism in seed plants. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-019-11471-8","ieee":"Y. Zhang, G. Xiao, X. Wang, X. Zhang, and J. Friml, “Evolution of fast root gravitropism in seed plants,” Nature Communications, vol. 10. Springer Nature, 2019.","ista":"Zhang Y, Xiao G, Wang X, Zhang X, Friml J. 2019. Evolution of fast root gravitropism in seed plants. Nature Communications. 10, 3480."},"publication":"Nature Communications","article_type":"original","abstract":[{"text":"An important adaptation during colonization of land by plants is gravitropic growth of roots, which enabled roots to reach water and nutrients, and firmly anchor plants in the ground. Here we provide insights into the evolution of an efficient root gravitropic mechanism in the seed plants. Architectural innovation, with gravity perception constrained in the root tips\r\nalong with a shootward transport route for the phytohormone auxin, appeared only upon the emergence of seed plants. Interspecies complementation and protein domain swapping revealed functional innovations within the PIN family of auxin transporters leading to the evolution of gravitropism-specific PINs. The unique apical/shootward subcellular localization of PIN proteins is the major evolutionary innovation that connected the anatomically separated sites of gravity perception and growth response via the mobile auxin signal. We conclude that the crucial anatomical and functional components emerged hand-in-hand to facilitate the evolution of fast gravitropic response, which is one of the major adaptations of seed plants to dry land.","lang":"eng"}],"type":"journal_article","oa_version":"Published Version","file":[{"date_updated":"2020-07-14T12:47:40Z","date_created":"2019-08-12T07:09:20Z","checksum":"d2c654fdb97f33078f606fe0c298bf6e","relation":"main_file","file_id":"6798","file_size":6406141,"content_type":"application/pdf","creator":"dernst","file_name":"2019_NatureComm_Zhang.pdf","access_level":"open_access"}],"_id":"6778","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 10","ddc":["580"],"status":"public","title":"Evolution of fast root gravitropism in seed plants","publication_identifier":{"issn":["2041-1723"]},"month":"08","doi":"10.1038/s41467-019-11471-8","language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000478576500012"],"pmid":["31375675"]},"oa":1,"project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630"},{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"isi":1,"quality_controlled":"1","ec_funded":1,"file_date_updated":"2020-07-14T12:47:40Z","article_number":"3480","related_material":{"link":[{"url":"https://ist.ac.at/en/news/when-plant-roots-learned-to-follow-gravity/","relation":"press_release","description":"News on IST Homepage"}]},"author":[{"full_name":"Zhang, Yuzhou","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2627-6956","first_name":"Yuzhou","last_name":"Zhang"},{"first_name":"G","last_name":"Xiao","full_name":"Xiao, G"},{"first_name":"X","last_name":"Wang","full_name":"Wang, X"},{"full_name":"Zhang, Xixi","orcid":"0000-0001-7048-4627","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","last_name":"Zhang","first_name":"Xixi"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"}],"volume":10,"date_created":"2019-08-09T08:46:26Z","date_updated":"2023-08-29T07:02:44Z","pmid":1,"year":"2019","department":[{"_id":"JiFr"}],"publisher":"Springer Nature","publication_status":"published"},{"intvolume":" 19","status":"public","title":"Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6821","oa_version":"Submitted Version","type":"journal_article","issue":"6","abstract":[{"text":"To determine the visual sensitivities of an organism of interest, quantitative reverse transcription–polymerase chain reaction (qRT–PCR) is often used to quantify expression of the light‐sensitive opsins in the retina. While qRT–PCR is an affordable, high‐throughput method for measuring expression, it comes with inherent normalization issues that affect the interpretation of results, especially as opsin expression can vary greatly based on developmental stage, light environment or diurnal cycles. We tested for diurnal cycles of opsin expression over a period of 24 hr at 1‐hr increments and examined how normalization affects a data set with fluctuating expression levels using qRT–PCR and transcriptome data from the retinae of the cichlid Pelmatolapia mariae. We compared five methods of normalizing opsin expression relative to (a) the average of three stably expressed housekeeping genes (Ube2z, EF1‐α and β‐actin), (b) total RNA concentration, (c) GNAT2, (the cone‐specific subunit of transducin), (d) total opsin expression and (e) only opsins expressed in the same cone type. Normalizing by proportion of cone type produced the least variation and would be best for removing time‐of‐day variation. In contrast, normalizing by housekeeping genes produced the highest daily variation in expression and demonstrated that the peak of cone opsin expression was in the late afternoon. A weighted correlation network analysis showed that the expression of different cone opsins follows a very similar daily cycle. With the knowledge of how these normalization methods affect opsin expression data, we make recommendations for designing sampling approaches and quantification methods based upon the scientific question being examined.","lang":"eng"}],"page":"1447-1460","article_type":"original","citation":{"chicago":"Yourick, Miranda R., Benjamin A. Sandkam, William J Gammerdinger, Daniel Escobar-Camacho, Sri Pratima Nandamuri, Frances E. Clark, Brendan Joyce, Matthew A. Conte, Thomas D. Kocher, and Karen L. Carleton. “Diurnal Variation in Opsin Expression and Common Housekeeping Genes Necessitates Comprehensive Normalization Methods for Quantitative Real-Time PCR Analyses.” Molecular Ecology Resources. Wiley, 2019. https://doi.org/10.1111/1755-0998.13062.","short":"M.R. Yourick, B.A. Sandkam, W.J. Gammerdinger, D. Escobar-Camacho, S.P. Nandamuri, F.E. Clark, B. Joyce, M.A. Conte, T.D. Kocher, K.L. Carleton, Molecular Ecology Resources 19 (2019) 1447–1460.","mla":"Yourick, Miranda R., et al. “Diurnal Variation in Opsin Expression and Common Housekeeping Genes Necessitates Comprehensive Normalization Methods for Quantitative Real-Time PCR Analyses.” Molecular Ecology Resources, vol. 19, no. 6, Wiley, 2019, pp. 1447–60, doi:10.1111/1755-0998.13062.","apa":"Yourick, M. R., Sandkam, B. A., Gammerdinger, W. J., Escobar-Camacho, D., Nandamuri, S. P., Clark, F. E., … Carleton, K. L. (2019). Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses. Molecular Ecology Resources. Wiley. https://doi.org/10.1111/1755-0998.13062","ieee":"M. R. Yourick et al., “Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses,” Molecular Ecology Resources, vol. 19, no. 6. Wiley, pp. 1447–1460, 2019.","ista":"Yourick MR, Sandkam BA, Gammerdinger WJ, Escobar-Camacho D, Nandamuri SP, Clark FE, Joyce B, Conte MA, Kocher TD, Carleton KL. 2019. Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses. Molecular Ecology Resources. 19(6), 1447–1460.","ama":"Yourick MR, Sandkam BA, Gammerdinger WJ, et al. Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses. Molecular Ecology Resources. 2019;19(6):1447-1460. doi:10.1111/1755-0998.13062"},"publication":"Molecular Ecology Resources","date_published":"2019-11-01T00:00:00Z","scopus_import":"1","article_processing_charge":"No","day":"01","publisher":"Wiley","department":[{"_id":"BeVi"}],"publication_status":"published","pmid":1,"year":"2019","volume":19,"date_updated":"2023-08-29T07:10:44Z","date_created":"2019-08-18T22:00:41Z","author":[{"last_name":"Yourick","first_name":"Miranda R.","full_name":"Yourick, Miranda R."},{"full_name":"Sandkam, Benjamin A.","last_name":"Sandkam","first_name":"Benjamin A."},{"full_name":"Gammerdinger, William J","first_name":"William J","last_name":"Gammerdinger","id":"3A7E01BC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9638-1220"},{"full_name":"Escobar-Camacho, Daniel","first_name":"Daniel","last_name":"Escobar-Camacho"},{"full_name":"Nandamuri, Sri Pratima","last_name":"Nandamuri","first_name":"Sri Pratima"},{"first_name":"Frances E.","last_name":"Clark","full_name":"Clark, Frances E."},{"first_name":"Brendan","last_name":"Joyce","full_name":"Joyce, Brendan"},{"full_name":"Conte, Matthew A.","first_name":"Matthew A.","last_name":"Conte"},{"last_name":"Kocher","first_name":"Thomas D.","full_name":"Kocher, Thomas D."},{"first_name":"Karen L.","last_name":"Carleton","full_name":"Carleton, Karen L."}],"quality_controlled":"1","isi":1,"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6995727","open_access":"1"}],"oa":1,"external_id":{"pmid":["31325910"],"isi":["000480196800001"]},"language":[{"iso":"eng"}],"doi":"10.1111/1755-0998.13062","publication_identifier":{"eissn":["1755-0998"]},"month":"11"},{"file_date_updated":"2020-07-14T12:47:40Z","ec_funded":1,"author":[{"full_name":"Leopold, Nikolai K","orcid":"0000-0002-0495-6822","id":"4BC40BEC-F248-11E8-B48F-1D18A9856A87","last_name":"Leopold","first_name":"Nikolai K"},{"last_name":"Petrat","first_name":"Sören P","orcid":"0000-0002-9166-5889","id":"40AC02DC-F248-11E8-B48F-1D18A9856A87","full_name":"Petrat, Sören P"}],"date_updated":"2023-08-29T07:09:06Z","date_created":"2019-08-11T21:59:21Z","volume":20,"year":"2019","publication_status":"published","department":[{"_id":"RoSe"}],"publisher":"Springer Nature","month":"10","publication_identifier":{"eissn":["1424-0661"],"issn":["1424-0637"]},"doi":"10.1007/s00023-019-00828-w","language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000487036900008"],"arxiv":["1807.06781"]},"quality_controlled":"1","isi":1,"project":[{"call_identifier":"H2020","name":"Analysis of quantum many-body systems","grant_number":"694227","_id":"25C6DC12-B435-11E9-9278-68D0E5697425"},{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"abstract":[{"text":"We consider the Nelson model with ultraviolet cutoff, which describes the interaction between non-relativistic particles and a positive or zero mass quantized scalar field. We take the non-relativistic particles to obey Fermi statistics and discuss the time evolution in a mean-field limit of many fermions. In this case, the limit is known to be also a semiclassical limit. We prove convergence in terms of reduced density matrices of the many-body state to a tensor product of a Slater determinant with semiclassical structure and a coherent state, which evolve according to a fermionic version of the Schrödinger–Klein–Gordon equations.","lang":"eng"}],"issue":"10","type":"journal_article","oa_version":"Published Version","file":[{"checksum":"b6dbf0d837d809293d449adf77138904","date_created":"2019-08-12T12:05:58Z","date_updated":"2020-07-14T12:47:40Z","file_id":"6801","relation":"main_file","creator":"dernst","file_size":681139,"content_type":"application/pdf","access_level":"open_access","file_name":"2019_AnnalesHenriPoincare_Leopold.pdf"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6788","ddc":["510"],"title":"Mean-field dynamics for the Nelson model with fermions","status":"public","intvolume":" 20","day":"01","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","scopus_import":"1","date_published":"2019-10-01T00:00:00Z","publication":"Annales Henri Poincare","citation":{"short":"N.K. Leopold, S.P. Petrat, Annales Henri Poincare 20 (2019) 3471–3508.","mla":"Leopold, Nikolai K., and Sören P. Petrat. “Mean-Field Dynamics for the Nelson Model with Fermions.” Annales Henri Poincare, vol. 20, no. 10, Springer Nature, 2019, pp. 3471–3508, doi:10.1007/s00023-019-00828-w.","chicago":"Leopold, Nikolai K, and Sören P Petrat. “Mean-Field Dynamics for the Nelson Model with Fermions.” Annales Henri Poincare. Springer Nature, 2019. https://doi.org/10.1007/s00023-019-00828-w.","ama":"Leopold NK, Petrat SP. Mean-field dynamics for the Nelson model with fermions. Annales Henri Poincare. 2019;20(10):3471–3508. doi:10.1007/s00023-019-00828-w","apa":"Leopold, N. K., & Petrat, S. P. (2019). Mean-field dynamics for the Nelson model with fermions. Annales Henri Poincare. Springer Nature. https://doi.org/10.1007/s00023-019-00828-w","ieee":"N. K. Leopold and S. P. Petrat, “Mean-field dynamics for the Nelson model with fermions,” Annales Henri Poincare, vol. 20, no. 10. Springer Nature, pp. 3471–3508, 2019.","ista":"Leopold NK, Petrat SP. 2019. Mean-field dynamics for the Nelson model with fermions. Annales Henri Poincare. 20(10), 3471–3508."},"article_type":"original","page":"3471–3508"},{"scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"01","page":"9597-9608","article_type":"original","citation":{"ama":"Trubenova B, Hager R. Green beards in the light of indirect genetic effects. Ecology and Evolution. 2019;9(17):9597-9608. doi:10.1002/ece3.5484","ista":"Trubenova B, Hager R. 2019. Green beards in the light of indirect genetic effects. Ecology and Evolution. 9(17), 9597–9608.","apa":"Trubenova, B., & Hager, R. (2019). Green beards in the light of indirect genetic effects. Ecology and Evolution. Wiley. https://doi.org/10.1002/ece3.5484","ieee":"B. Trubenova and R. Hager, “Green beards in the light of indirect genetic effects,” Ecology and Evolution, vol. 9, no. 17. Wiley, pp. 9597–9608, 2019.","mla":"Trubenova, Barbora, and Reinmar Hager. “Green Beards in the Light of Indirect Genetic Effects.” Ecology and Evolution, vol. 9, no. 17, Wiley, 2019, pp. 9597–608, doi:10.1002/ece3.5484.","short":"B. Trubenova, R. Hager, Ecology and Evolution 9 (2019) 9597–9608.","chicago":"Trubenova, Barbora, and Reinmar Hager. “Green Beards in the Light of Indirect Genetic Effects.” Ecology and Evolution. Wiley, 2019. https://doi.org/10.1002/ece3.5484."},"publication":"Ecology and Evolution","date_published":"2019-09-01T00:00:00Z","type":"journal_article","issue":"17","abstract":[{"lang":"eng","text":"The green‐beard effect is one proposed mechanism predicted to underpin the evolu‐tion of altruistic behavior. It relies on the recognition and the selective help of altruists to each other in order to promote and sustain altruistic behavior. However, this mechanism has often been dismissed as unlikely or uncommon, as it is assumed that both the signaling trait and altruistic trait need to be encoded by the same gene or through tightly linked genes. Here, we use models of indirect genetic effects (IGEs) to find the minimum correlation between the signaling and altruistic trait required for the evolution of the latter. We show that this correlation threshold depends on the strength of the interaction (influence of the green beard on the expression of the altruistic trait), as well as the costs and benefits of the altruistic behavior. We further show that this correlation does not necessarily have to be high and support our analytical results by simulations."}],"intvolume":" 9","title":"Green beards in the light of indirect genetic effects","ddc":["576"],"status":"public","_id":"6795","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Published Version","file":[{"checksum":"adcb70af4901977d95b8747eeee01bd7","date_created":"2019-08-12T07:30:30Z","date_updated":"2020-07-14T12:47:40Z","file_id":"6799","relation":"main_file","creator":"dernst","content_type":"application/pdf","file_size":2839636,"access_level":"open_access","file_name":"2019_EcologyEvolution_Trubenova.pdf"}],"publication_identifier":{"eissn":["20457758"]},"month":"09","project":[{"_id":"25AEDD42-B435-11E9-9278-68D0E5697425","grant_number":"704172","call_identifier":"H2020","name":"Rate of Adaptation in Changing Environment"}],"quality_controlled":"1","isi":1,"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000479973400001"]},"language":[{"iso":"eng"}],"doi":"10.1002/ece3.5484","ec_funded":1,"file_date_updated":"2020-07-14T12:47:40Z","publisher":"Wiley","department":[{"_id":"NiBa"}],"publication_status":"published","year":"2019","volume":9,"date_updated":"2023-08-29T07:03:10Z","date_created":"2019-08-11T21:59:24Z","author":[{"last_name":"Trubenova","first_name":"Barbora","orcid":"0000-0002-6873-2967","id":"42302D54-F248-11E8-B48F-1D18A9856A87","full_name":"Trubenova, Barbora"},{"full_name":"Hager, Reinmar","first_name":"Reinmar","last_name":"Hager"}]},{"oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1903.04929"}],"external_id":{"arxiv":["1903.04929"],"isi":["000478560200001"]},"project":[{"_id":"266A2E9E-B435-11E9-9278-68D0E5697425","grant_number":"788183","call_identifier":"H2020","name":"Alpha Shape Theory Extended"}],"quality_controlled":"1","isi":1,"doi":"10.1112/blms.12276","language":[{"iso":"eng"}],"publication_identifier":{"issn":["00246093"],"eissn":["14692120"]},"month":"10","year":"2019","department":[{"_id":"HeEd"}],"publisher":"London Mathematical Society","publication_status":"published","author":[{"last_name":"Akopyan","first_name":"Arseniy","orcid":"0000-0002-2548-617X","id":"430D2C90-F248-11E8-B48F-1D18A9856A87","full_name":"Akopyan, Arseniy"},{"full_name":"Izmestiev, Ivan","first_name":"Ivan","last_name":"Izmestiev"}],"volume":51,"date_created":"2019-08-11T21:59:23Z","date_updated":"2023-08-29T07:08:34Z","ec_funded":1,"citation":{"ama":"Akopyan A, Izmestiev I. The Regge symmetry, confocal conics, and the Schläfli formula. Bulletin of the London Mathematical Society. 2019;51(5):765-775. doi:10.1112/blms.12276","ista":"Akopyan A, Izmestiev I. 2019. The Regge symmetry, confocal conics, and the Schläfli formula. Bulletin of the London Mathematical Society. 51(5), 765–775.","ieee":"A. Akopyan and I. Izmestiev, “The Regge symmetry, confocal conics, and the Schläfli formula,” Bulletin of the London Mathematical Society, vol. 51, no. 5. London Mathematical Society, pp. 765–775, 2019.","apa":"Akopyan, A., & Izmestiev, I. (2019). The Regge symmetry, confocal conics, and the Schläfli formula. Bulletin of the London Mathematical Society. London Mathematical Society. https://doi.org/10.1112/blms.12276","mla":"Akopyan, Arseniy, and Ivan Izmestiev. “The Regge Symmetry, Confocal Conics, and the Schläfli Formula.” Bulletin of the London Mathematical Society, vol. 51, no. 5, London Mathematical Society, 2019, pp. 765–75, doi:10.1112/blms.12276.","short":"A. Akopyan, I. Izmestiev, Bulletin of the London Mathematical Society 51 (2019) 765–775.","chicago":"Akopyan, Arseniy, and Ivan Izmestiev. “The Regge Symmetry, Confocal Conics, and the Schläfli Formula.” Bulletin of the London Mathematical Society. London Mathematical Society, 2019. https://doi.org/10.1112/blms.12276."},"publication":"Bulletin of the London Mathematical Society","page":"765-775","article_type":"original","date_published":"2019-10-01T00:00:00Z","scopus_import":"1","article_processing_charge":"No","day":"01","_id":"6793","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 51","status":"public","title":"The Regge symmetry, confocal conics, and the Schläfli formula","oa_version":"Preprint","type":"journal_article","issue":"5","abstract":[{"lang":"eng","text":"The Regge symmetry is a set of remarkable relations between two tetrahedra whose edge lengths are related in a simple fashion. It was first discovered as a consequence of an asymptotic formula in mathematical physics. Here, we give a simple geometric proof of Regge symmetries in Euclidean, spherical, and hyperbolic geometry."}]},{"month":"07","day":"02","article_processing_charge":"No","doi":"10.1371/journal.pcbi.1007168.s001","date_published":"2019-07-02T00:00:00Z","citation":{"ieee":"J. Ruess, M. Pleska, C. C. Guet, and G. Tkačik, “Supporting text and results.” Public Library of Science, 2019.","apa":"Ruess, J., Pleska, M., Guet, C. C., & Tkačik, G. (2019). Supporting text and results. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1007168.s001","ista":"Ruess J, Pleska M, Guet CC, Tkačik G. 2019. Supporting text and results, Public Library of Science, 10.1371/journal.pcbi.1007168.s001.","ama":"Ruess J, Pleska M, Guet CC, Tkačik G. Supporting text and results. 2019. doi:10.1371/journal.pcbi.1007168.s001","chicago":"Ruess, Jakob, Maros Pleska, Calin C Guet, and Gašper Tkačik. “Supporting Text and Results.” Public Library of Science, 2019. https://doi.org/10.1371/journal.pcbi.1007168.s001.","short":"J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, (2019).","mla":"Ruess, Jakob, et al. Supporting Text and Results. Public Library of Science, 2019, doi:10.1371/journal.pcbi.1007168.s001."},"type":"research_data_reference","date_updated":"2023-08-29T07:10:05Z","date_created":"2021-08-06T08:23:43Z","oa_version":"Published Version","author":[{"first_name":"Jakob","last_name":"Ruess","id":"4A245D00-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1615-3282","full_name":"Ruess, Jakob"},{"full_name":"Pleska, Maros","orcid":"0000-0001-7460-7479","id":"4569785E-F248-11E8-B48F-1D18A9856A87","last_name":"Pleska","first_name":"Maros"},{"last_name":"Guet","first_name":"Calin C","orcid":"0000-0001-6220-2052","id":"47F8433E-F248-11E8-B48F-1D18A9856A87","full_name":"Guet, Calin C"},{"full_name":"Tkačik, Gašper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","last_name":"Tkačik","first_name":"Gašper"}],"related_material":{"record":[{"id":"6784","status":"public","relation":"used_in_publication"}]},"title":"Supporting text and results","status":"public","publisher":"Public Library of Science","department":[{"_id":"CaGu"},{"_id":"GaTk"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","_id":"9786","year":"2019"},{"quality_controlled":"1","isi":1,"project":[{"name":"International IST Doctoral Program","call_identifier":"H2020","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000481376500001"]},"language":[{"iso":"eng"}],"doi":"10.1111/nph.16050","month":"11","publication_identifier":{"eissn":["1469-8137"]},"publication_status":"published","publisher":"Wiley","department":[{"_id":"NiBa"},{"_id":"BeVi"}],"year":"2019","date_created":"2019-08-25T22:00:51Z","date_updated":"2023-08-29T07:17:07Z","volume":224,"author":[{"full_name":"Puixeu Sala, Gemma","orcid":"0000-0001-8330-1754","id":"33AB266C-F248-11E8-B48F-1D18A9856A87","last_name":"Puixeu Sala","first_name":"Gemma"},{"full_name":"Pickup, Melinda","id":"2C78037E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6118-0541","first_name":"Melinda","last_name":"Pickup"},{"full_name":"Field, David","last_name":"Field","first_name":"David","orcid":"0000-0002-4014-8478"},{"first_name":"Spencer C.H.","last_name":"Barrett","full_name":"Barrett, Spencer C.H."}],"related_material":{"record":[{"id":"9803","status":"public","relation":"research_data"},{"status":"public","relation":"dissertation_contains","id":"14058"}]},"file_date_updated":"2020-07-14T12:47:42Z","ec_funded":1,"article_type":"original","page":"1108-1120","publication":"New Phytologist","citation":{"chicago":"Puixeu Sala, Gemma, Melinda Pickup, David Field, and Spencer C.H. Barrett. “Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics.” New Phytologist. Wiley, 2019. https://doi.org/10.1111/nph.16050.","short":"G. Puixeu Sala, M. Pickup, D. Field, S.C.H. Barrett, New Phytologist 224 (2019) 1108–1120.","mla":"Puixeu Sala, Gemma, et al. “Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics.” New Phytologist, vol. 224, no. 3, Wiley, 2019, pp. 1108–20, doi:10.1111/nph.16050.","apa":"Puixeu Sala, G., Pickup, M., Field, D., & Barrett, S. C. H. (2019). Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics. New Phytologist. Wiley. https://doi.org/10.1111/nph.16050","ieee":"G. Puixeu Sala, M. Pickup, D. Field, and S. C. H. Barrett, “Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics,” New Phytologist, vol. 224, no. 3. Wiley, pp. 1108–1120, 2019.","ista":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. 2019. Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics. New Phytologist. 224(3), 1108–1120.","ama":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics. New Phytologist. 2019;224(3):1108-1120. doi:10.1111/nph.16050"},"date_published":"2019-11-01T00:00:00Z","scopus_import":"1","day":"01","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","ddc":["570"],"title":"Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics","status":"public","intvolume":" 224","_id":"6831","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"file_name":"2019_NewPhytologist_Puixeu.pdf","access_level":"open_access","file_size":2314016,"content_type":"application/pdf","creator":"apreinsp","relation":"main_file","file_id":"6833","date_created":"2019-08-27T12:44:54Z","date_updated":"2020-07-14T12:47:42Z","checksum":"6370e7567d96b7b562e77d8b89653f80"}],"oa_version":"Published Version","type":"journal_article","abstract":[{"lang":"eng","text":"* Understanding the mechanisms causing phenotypic differences between females and males has long fascinated evolutionary biologists. An extensive literature exists on animal sexual dimorphism but less information is known about sex differences in plants, particularly the extent of geographical variation in sexual dimorphism and its life‐cycle dynamics.\r\n* Here, we investigated patterns of genetically based sexual dimorphism in vegetative and reproductive traits of a wind‐pollinated dioecious plant, Rumex hastatulus, across three life‐cycle stages using open‐pollinated families from 30 populations spanning the geographic range and chromosomal variation (XY and XY1Y2) of the species.\r\n* The direction and degree of sexual dimorphism was highly variable among populations and life‐cycle stages. Sex‐specific differences in reproductive function explained a significant amount of temporal change in sexual dimorphism. For several traits, geographical variation in sexual dimorphism was associated with bioclimatic parameters, likely due to the differential responses of the sexes to climate. We found no systematic differences in sexual dimorphism between chromosome races.\r\n* Sex‐specific trait differences in dioecious plants largely result from a balance between sexual and natural selection on resource allocation. Our results indicate that abiotic factors associated with geographical context also play a role in modifying sexual dimorphism during the plant life‐cycle."}],"issue":"3"},{"project":[{"call_identifier":"H2020","name":"Mechanical Adaptation of Lamellipodial Actin Networks in Migrating Cells","_id":"260AA4E2-B435-11E9-9278-68D0E5697425","grant_number":"747687"}],"isi":1,"quality_controlled":"1","external_id":{"isi":["000499090600011"],"pmid":["31409920"]},"language":[{"iso":"eng"}],"doi":"10.1038/s41577-019-0202-z","publication_identifier":{"issn":["1474-1733"],"eissn":["1474-1741"]},"month":"12","department":[{"_id":"MiSi"}],"publisher":"Springer Nature","publication_status":"published","pmid":1,"year":"2019","volume":19,"date_created":"2019-08-20T17:24:32Z","date_updated":"2023-08-29T07:16:14Z","author":[{"full_name":"Gärtner, Florian R","first_name":"Florian R","last_name":"Gärtner","id":"397A88EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6120-3723"},{"full_name":"Massberg, Steffen","last_name":"Massberg","first_name":"Steffen"}],"ec_funded":1,"page":"747–760","article_type":"original","citation":{"chicago":"Gärtner, Florian R, and Steffen Massberg. “Patrolling the Vascular Borders: Platelets in Immunity to Infection and Cancer.” Nature Reviews Immunology. Springer Nature, 2019. https://doi.org/10.1038/s41577-019-0202-z.","short":"F.R. Gärtner, S. Massberg, Nature Reviews Immunology 19 (2019) 747–760.","mla":"Gärtner, Florian R., and Steffen Massberg. “Patrolling the Vascular Borders: Platelets in Immunity to Infection and Cancer.” Nature Reviews Immunology, vol. 19, no. 12, Springer Nature, 2019, pp. 747–760, doi:10.1038/s41577-019-0202-z.","ieee":"F. R. Gärtner and S. Massberg, “Patrolling the vascular borders: Platelets in immunity to infection and cancer,” Nature Reviews Immunology, vol. 19, no. 12. Springer Nature, pp. 747–760, 2019.","apa":"Gärtner, F. R., & Massberg, S. (2019). Patrolling the vascular borders: Platelets in immunity to infection and cancer. Nature Reviews Immunology. Springer Nature. https://doi.org/10.1038/s41577-019-0202-z","ista":"Gärtner FR, Massberg S. 2019. Patrolling the vascular borders: Platelets in immunity to infection and cancer. Nature Reviews Immunology. 19(12), 747–760.","ama":"Gärtner FR, Massberg S. Patrolling the vascular borders: Platelets in immunity to infection and cancer. Nature Reviews Immunology. 2019;19(12):747–760. doi:10.1038/s41577-019-0202-z"},"publication":"Nature Reviews Immunology","date_published":"2019-12-01T00:00:00Z","scopus_import":"1","article_processing_charge":"No","day":"01","intvolume":" 19","title":"Patrolling the vascular borders: Platelets in immunity to infection and cancer","status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6824","oa_version":"None","type":"journal_article","issue":"12","abstract":[{"lang":"eng","text":"Platelets are small anucleate cellular fragments that are released by megakaryocytes and safeguard vascular integrity through a process termed ‘haemostasis’. However, platelets have important roles beyond haemostasis as they contribute to the initiation and coordination of intravascular immune responses. They continuously monitor blood vessel integrity and tightly coordinate vascular trafficking and functions of multiple cell types. In this way platelets act as ‘patrolling officers of the vascular highway’ that help to establish effective immune responses to infections and cancer. Here we discuss the distinct biological features of platelets that allow them to shape immune responses to pathogens and tumour cells, highlighting the parallels between these responses."}]},{"date_published":"2019-08-16T00:00:00Z","page":"705-710","citation":{"ama":"Krndija D, Marjou FE, Guirao B, et al. Active cell migration is critical for steady-state epithelial turnover in the gut. Science. 2019;365(6454):705-710. doi:10.1126/science.aau3429","ieee":"D. Krndija et al., “Active cell migration is critical for steady-state epithelial turnover in the gut,” Science, vol. 365, no. 6454. American Association for the Advancement of Science, pp. 705–710, 2019.","apa":"Krndija, D., Marjou, F. E., Guirao, B., Richon, S., Leroy, O., Bellaiche, Y., … Vignjevic, D. M. (2019). Active cell migration is critical for steady-state epithelial turnover in the gut. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.aau3429","ista":"Krndija D, Marjou FE, Guirao B, Richon S, Leroy O, Bellaiche Y, Hannezo EB, Vignjevic DM. 2019. Active cell migration is critical for steady-state epithelial turnover in the gut. Science. 365(6454), 705–710.","short":"D. Krndija, F.E. Marjou, B. Guirao, S. Richon, O. Leroy, Y. Bellaiche, E.B. Hannezo, D.M. Vignjevic, Science 365 (2019) 705–710.","mla":"Krndija, Denis, et al. “Active Cell Migration Is Critical for Steady-State Epithelial Turnover in the Gut.” Science, vol. 365, no. 6454, American Association for the Advancement of Science, 2019, pp. 705–10, doi:10.1126/science.aau3429.","chicago":"Krndija, Denis, Fatima El Marjou, Boris Guirao, Sophie Richon, Olivier Leroy, Yohanns Bellaiche, Edouard B Hannezo, and Danijela Matic Vignjevic. “Active Cell Migration Is Critical for Steady-State Epithelial Turnover in the Gut.” Science. American Association for the Advancement of Science, 2019. https://doi.org/10.1126/science.aau3429."},"publication":"Science","article_processing_charge":"No","day":"16","scopus_import":"1","oa_version":"None","intvolume":" 365","status":"public","title":"Active cell migration is critical for steady-state epithelial turnover in the gut","_id":"6832","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","issue":"6454","abstract":[{"text":"Steady-state turnover is a hallmark of epithelial tissues throughout adult life. Intestinal epithelial turnover is marked by continuous cell migration, which is assumed to be driven by mitotic pressure from the crypts. However, the balance of forces in renewal remains ill-defined. Combining biophysical modeling and quantitative three-dimensional tissue imaging with genetic and physical manipulations, we revealed the existence of an actin-related protein 2/3 complex–dependent active migratory force, which explains quantitatively the profiles of cell speed, density, and tissue tension along the villi. Cells migrate collectively with minimal rearrangements while displaying dual—apicobasal and front-back—polarity characterized by actin-rich basal protrusions oriented in the direction of migration. We propose that active migration is a critical component of gut epithelial turnover.","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1126/science.aau3429","isi":1,"quality_controlled":"1","external_id":{"isi":["000481688700050"],"pmid":["31416964"]},"month":"08","volume":365,"date_updated":"2023-08-29T07:16:40Z","date_created":"2019-08-25T22:00:51Z","author":[{"first_name":"Denis","last_name":"Krndija","full_name":"Krndija, Denis"},{"last_name":"Marjou","first_name":"Fatima El","full_name":"Marjou, Fatima El"},{"full_name":"Guirao, Boris","first_name":"Boris","last_name":"Guirao"},{"full_name":"Richon, Sophie","last_name":"Richon","first_name":"Sophie"},{"full_name":"Leroy, Olivier","first_name":"Olivier","last_name":"Leroy"},{"first_name":"Yohanns","last_name":"Bellaiche","full_name":"Bellaiche, Yohanns"},{"last_name":"Hannezo","first_name":"Edouard B","orcid":"0000-0001-6005-1561","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","full_name":"Hannezo, Edouard B"},{"last_name":"Vignjevic","first_name":"Danijela Matic","full_name":"Vignjevic, Danijela Matic"}],"department":[{"_id":"EdHa"}],"publisher":"American Association for the Advancement of Science","publication_status":"published","pmid":1,"year":"2019"},{"intvolume":" 171","title":"Indigoidine - Biosynthesized organic semiconductor","status":"public","_id":"6818","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"None","type":"journal_article","abstract":[{"lang":"eng","text":"Indigoidine is a blue natural pigment, which can be efficiently synthetized in E. coli. In addition to its antioxidant and antimicrobial activities indigoidine due to its stability and deep blue color can find an application as an industrial, environmentally friendly dye. Moreover, similarly to its counterpart regular indigo dye, due to its molecular structure, indigoidine is an organic semiconductor. Fully conjugated aromatic moiety and intermolecular hydrogen bonding of indigoidine result in an unusually narrow bandgap for such a small molecule. This, in its turn, result is tight molecular packing in the solid state and opens a path for a wide range of application in organic and bio-electronics, such as electrochemical and field effect transistors, organic solar cells, light and bio-sensors etc."}],"article_type":"original","citation":{"apa":"Yumusak, C., Prochazkova, A. J., Apaydin, D. H., Seelajaroen, H., Sariciftci, N. S., Weiter, M., … Kovalenko, A. (2019). Indigoidine - Biosynthesized organic semiconductor. Dyes and Pigments. Elsevier. https://doi.org/10.1016/j.dyepig.2019.107768","ieee":"C. Yumusak et al., “Indigoidine - Biosynthesized organic semiconductor,” Dyes and Pigments, vol. 171. Elsevier, 2019.","ista":"Yumusak C, Prochazkova AJ, Apaydin DH, Seelajaroen H, Sariciftci NS, Weiter M, Krajcovic J, Qin Y, Zhang W, Zhan J, Kovalenko A. 2019. Indigoidine - Biosynthesized organic semiconductor. Dyes and Pigments. 171, 107768.","ama":"Yumusak C, Prochazkova AJ, Apaydin DH, et al. Indigoidine - Biosynthesized organic semiconductor. Dyes and Pigments. 2019;171. doi:10.1016/j.dyepig.2019.107768","chicago":"Yumusak, Cigdem, Anna Jancik Prochazkova, Dogukan H Apaydin, Hathaichanok Seelajaroen, Niyazi Serdar Sariciftci, Martin Weiter, Jozef Krajcovic, et al. “Indigoidine - Biosynthesized Organic Semiconductor.” Dyes and Pigments. Elsevier, 2019. https://doi.org/10.1016/j.dyepig.2019.107768.","short":"C. Yumusak, A.J. Prochazkova, D.H. Apaydin, H. Seelajaroen, N.S. Sariciftci, M. Weiter, J. Krajcovic, Y. Qin, W. Zhang, J. Zhan, A. Kovalenko, Dyes and Pigments 171 (2019).","mla":"Yumusak, Cigdem, et al. “Indigoidine - Biosynthesized Organic Semiconductor.” Dyes and Pigments, vol. 171, 107768, Elsevier, 2019, doi:10.1016/j.dyepig.2019.107768."},"publication":"Dyes and Pigments","date_published":"2019-12-01T00:00:00Z","scopus_import":"1","article_processing_charge":"No","day":"01","department":[{"_id":"MaIb"}],"publisher":"Elsevier","publication_status":"published","year":"2019","volume":171,"date_created":"2019-08-18T22:00:39Z","date_updated":"2023-08-29T07:11:09Z","author":[{"last_name":"Yumusak","first_name":"Cigdem","full_name":"Yumusak, Cigdem"},{"first_name":"Anna Jancik","last_name":"Prochazkova","full_name":"Prochazkova, Anna Jancik"},{"full_name":"Apaydin, Dogukan H","orcid":"0000-0002-1075-8857","id":"2FF891BC-F248-11E8-B48F-1D18A9856A87","last_name":"Apaydin","first_name":"Dogukan H"},{"last_name":"Seelajaroen","first_name":"Hathaichanok","full_name":"Seelajaroen, Hathaichanok"},{"first_name":"Niyazi Serdar","last_name":"Sariciftci","full_name":"Sariciftci, Niyazi Serdar"},{"full_name":"Weiter, Martin","last_name":"Weiter","first_name":"Martin"},{"last_name":"Krajcovic","first_name":"Jozef","full_name":"Krajcovic, Jozef"},{"full_name":"Qin, Yong","last_name":"Qin","first_name":"Yong"},{"last_name":"Zhang","first_name":"Wei","full_name":"Zhang, Wei"},{"last_name":"Zhan","first_name":"Jixun","full_name":"Zhan, Jixun"},{"full_name":"Kovalenko, Alexander","first_name":"Alexander","last_name":"Kovalenko"}],"article_number":"107768","quality_controlled":"1","isi":1,"external_id":{"isi":["000484870700099"]},"language":[{"iso":"eng"}],"doi":"10.1016/j.dyepig.2019.107768","publication_identifier":{"issn":["0143-7208"]},"month":"12"},{"date_published":"2019-11-15T00:00:00Z","article_type":"original","page":"261-289","publication":"Journal of Algebra","citation":{"chicago":"Brown, Adam. “Arakawa-Suzuki Functors for Whittaker Modules.” Journal of Algebra. Elsevier, 2019. https://doi.org/10.1016/j.jalgebra.2019.07.027.","short":"A. Brown, Journal of Algebra 538 (2019) 261–289.","mla":"Brown, Adam. “Arakawa-Suzuki Functors for Whittaker Modules.” Journal of Algebra, vol. 538, Elsevier, 2019, pp. 261–89, doi:10.1016/j.jalgebra.2019.07.027.","apa":"Brown, A. (2019). Arakawa-Suzuki functors for Whittaker modules. Journal of Algebra. Elsevier. https://doi.org/10.1016/j.jalgebra.2019.07.027","ieee":"A. Brown, “Arakawa-Suzuki functors for Whittaker modules,” Journal of Algebra, vol. 538. Elsevier, pp. 261–289, 2019.","ista":"Brown A. 2019. Arakawa-Suzuki functors for Whittaker modules. Journal of Algebra. 538, 261–289.","ama":"Brown A. Arakawa-Suzuki functors for Whittaker modules. Journal of Algebra. 2019;538:261-289. doi:10.1016/j.jalgebra.2019.07.027"},"day":"15","article_processing_charge":"No","oa_version":"Preprint","status":"public","title":"Arakawa-Suzuki functors for Whittaker modules","intvolume":" 538","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6828","abstract":[{"text":"In this paper we construct a family of exact functors from the category of Whittaker modules of the simple complex Lie algebra of type to the category of finite-dimensional modules of the graded affine Hecke algebra of type . Using results of Backelin [2] and of Arakawa-Suzuki [1], we prove that these functors map standard modules to standard modules (or zero) and simple modules to simple modules (or zero). Moreover, we show that each simple module of the graded affine Hecke algebra appears as the image of a simple Whittaker module. Since the Whittaker category contains the BGG category as a full subcategory, our results generalize results of Arakawa-Suzuki [1], which in turn generalize Schur-Weyl duality between finite-dimensional representations of and representations of the symmetric group .","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1016/j.jalgebra.2019.07.027","isi":1,"quality_controlled":"1","oa":1,"main_file_link":[{"url":"https://arxiv.org/abs/1805.04676","open_access":"1"}],"external_id":{"isi":["000487176300011"],"arxiv":["1805.04676"]},"month":"11","publication_identifier":{"issn":["0021-8693"]},"date_created":"2019-08-22T07:54:13Z","date_updated":"2023-08-29T07:11:47Z","volume":538,"author":[{"id":"70B7FDF6-608D-11E9-9333-8535E6697425","first_name":"Adam","last_name":"Brown","full_name":"Brown, Adam"}],"publication_status":"published","publisher":"Elsevier","department":[{"_id":"HeEd"}],"year":"2019"},{"date_created":"2021-08-06T11:48:42Z","date_updated":"2023-08-29T07:17:07Z","oa_version":"Published Version","author":[{"first_name":"Gemma","last_name":"Puixeu Sala","id":"33AB266C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8330-1754","full_name":"Puixeu Sala, Gemma"},{"orcid":"0000-0001-6118-0541","id":"2C78037E-F248-11E8-B48F-1D18A9856A87","last_name":"Pickup","first_name":"Melinda","full_name":"Pickup, Melinda"},{"full_name":"Field, David","first_name":"David","last_name":"Field"},{"full_name":"Barrett, Spencer C.H.","last_name":"Barrett","first_name":"Spencer C.H."}],"related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"14058"},{"relation":"used_in_publication","status":"public","id":"6831"}]},"status":"public","title":"Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics","department":[{"_id":"NiBa"},{"_id":"BeVi"}],"publisher":"Dryad","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","_id":"9803","year":"2019","abstract":[{"lang":"eng","text":"Understanding the mechanisms causing phenotypic differences between females and males has long fascinated evolutionary biologists. An extensive literature exists on animal sexual dimorphism but less is known about sex differences in plants, particularly the extent of geographical variation in sexual dimorphism and its life-cycle dynamics. Here, we investigate patterns of genetically-based sexual dimorphism in vegetative and reproductive traits of a wind-pollinated dioecious plant, Rumex hastatulus, across three life-cycle stages using open-pollinated families from 30 populations spanning the geographic range and chromosomal variation (XY and XY1Y2) of the species. The direction and degree of sexual dimorphism was highly variable among populations and life-cycle stages. Sex-specific differences in reproductive function explained a significant amount of temporal change in sexual dimorphism. For several traits, geographical variation in sexual dimorphism was associated with bioclimatic parameters, likely due to the differential responses of the sexes to climate. We found no systematic differences in sexual dimorphism between chromosome races. Sex-specific trait differences in dioecious plants largely result from a balance between sexual and natural selection on resource allocation. Our results indicate that abiotic factors associated with geographical context also play a role in modifying sexual dimorphism during the plant life cycle."}],"type":"research_data_reference","date_published":"2019-07-22T00:00:00Z","doi":"10.5061/dryad.n1701c9","citation":{"ama":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics. 2019. doi:10.5061/dryad.n1701c9","ista":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. 2019. Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics, Dryad, 10.5061/dryad.n1701c9.","apa":"Puixeu Sala, G., Pickup, M., Field, D., & Barrett, S. C. H. (2019). Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics. Dryad. https://doi.org/10.5061/dryad.n1701c9","ieee":"G. Puixeu Sala, M. Pickup, D. Field, and S. C. H. Barrett, “Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics.” Dryad, 2019.","mla":"Puixeu Sala, Gemma, et al. Data from: Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics. Dryad, 2019, doi:10.5061/dryad.n1701c9.","short":"G. Puixeu Sala, M. Pickup, D. Field, S.C.H. Barrett, (2019).","chicago":"Puixeu Sala, Gemma, Melinda Pickup, David Field, and Spencer C.H. Barrett. “Data from: Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics.” Dryad, 2019. https://doi.org/10.5061/dryad.n1701c9."},"main_file_link":[{"url":"https://doi.org/10.5061/dryad.n1701c9","open_access":"1"}],"oa":1,"day":"22","month":"07","article_processing_charge":"No"},{"page":"524-527","article_type":"letter_note","citation":{"chicago":"Hauser, Oliver P., Christian Hilbe, Krishnendu Chatterjee, and Martin A. Nowak. “Social Dilemmas among Unequals.” Nature. Springer Nature, 2019. https://doi.org/10.1038/s41586-019-1488-5.","mla":"Hauser, Oliver P., et al. “Social Dilemmas among Unequals.” Nature, vol. 572, no. 7770, Springer Nature, 2019, pp. 524–27, doi:10.1038/s41586-019-1488-5.","short":"O.P. Hauser, C. Hilbe, K. Chatterjee, M.A. Nowak, Nature 572 (2019) 524–527.","ista":"Hauser OP, Hilbe C, Chatterjee K, Nowak MA. 2019. Social dilemmas among unequals. Nature. 572(7770), 524–527.","ieee":"O. P. Hauser, C. Hilbe, K. Chatterjee, and M. A. Nowak, “Social dilemmas among unequals,” Nature, vol. 572, no. 7770. Springer Nature, pp. 524–527, 2019.","apa":"Hauser, O. P., Hilbe, C., Chatterjee, K., & Nowak, M. A. (2019). Social dilemmas among unequals. Nature. Springer Nature. https://doi.org/10.1038/s41586-019-1488-5","ama":"Hauser OP, Hilbe C, Chatterjee K, Nowak MA. Social dilemmas among unequals. Nature. 2019;572(7770):524-527. doi:10.1038/s41586-019-1488-5"},"publication":"Nature","date_published":"2019-08-22T00:00:00Z","scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"22","intvolume":" 572","ddc":["000"],"title":"Social dilemmas among unequals","status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6836","file":[{"checksum":"a6e0e3168bf62de624e7772cdfaeb26f","date_updated":"2020-07-14T12:47:42Z","date_created":"2020-05-14T10:00:32Z","file_id":"7828","relation":"main_file","creator":"dernst","content_type":"application/pdf","file_size":18577756,"access_level":"open_access","file_name":"2019_Nature_Hauser.pdf"}],"oa_version":"Submitted Version","type":"journal_article","issue":"7770","abstract":[{"lang":"eng","text":"Direct reciprocity is a powerful mechanism for the evolution of cooperation on the basis of repeated interactions1,2,3,4. It requires that interacting individuals are sufficiently equal, such that everyone faces similar consequences when they cooperate or defect. Yet inequality is ubiquitous among humans5,6 and is generally considered to undermine cooperation and welfare7,8,9,10. Most previous models of reciprocity do not include inequality11,12,13,14,15. These models assume that individuals are the same in all relevant aspects. Here we introduce a general framework to study direct reciprocity among unequal individuals. Our model allows for multiple sources of inequality. Subjects can differ in their endowments, their productivities and in how much they benefit from public goods. We find that extreme inequality prevents cooperation. But if subjects differ in productivity, some endowment inequality can be necessary for cooperation to prevail. Our mathematical predictions are supported by a behavioural experiment in which we vary the endowments and productivities of the subjects. We observe that overall welfare is maximized when the two sources of heterogeneity are aligned, such that more productive individuals receive higher endowments. By contrast, when endowments and productivities are misaligned, cooperation quickly breaks down. Our findings have implications for policy-makers concerned with equity, efficiency and the provisioning of public goods."}],"project":[{"_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","grant_number":"S 11407_N23","call_identifier":"FWF","name":"Rigorous Systems Engineering"},{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7"}],"quality_controlled":"1","isi":1,"oa":1,"external_id":{"isi":["000482219600045"]},"language":[{"iso":"eng"}],"doi":"10.1038/s41586-019-1488-5","publication_identifier":{"eissn":["14764687"],"issn":["00280836"]},"month":"08","department":[{"_id":"KrCh"}],"publisher":"Springer Nature","publication_status":"published","year":"2019","volume":572,"date_updated":"2023-08-29T07:42:54Z","date_created":"2019-09-01T22:00:56Z","related_material":{"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/too-much-inequality-impedes-support-for-public-goods-according-to-research-published-in-nature/"}]},"author":[{"last_name":"Hauser","first_name":"Oliver P.","full_name":"Hauser, Oliver P."},{"full_name":"Hilbe, Christian","orcid":"0000-0001-5116-955X","id":"2FDF8F3C-F248-11E8-B48F-1D18A9856A87","last_name":"Hilbe","first_name":"Christian"},{"orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu"},{"first_name":"Martin A.","last_name":"Nowak","full_name":"Nowak, Martin A."}],"ec_funded":1,"file_date_updated":"2020-07-14T12:47:42Z"},{"file_date_updated":"2020-07-14T12:47:42Z","ec_funded":1,"author":[{"first_name":"Noemi","last_name":"Picco","full_name":"Picco, Noemi"},{"orcid":"0000-0003-2279-1061","id":"37B36620-F248-11E8-B48F-1D18A9856A87","last_name":"Hippenmeyer","first_name":"Simon","full_name":"Hippenmeyer, Simon"},{"id":"3C70A038-F248-11E8-B48F-1D18A9856A87","first_name":"Julio","last_name":"Rodarte","full_name":"Rodarte, Julio"},{"full_name":"Streicher, Carmen","id":"36BCB99C-F248-11E8-B48F-1D18A9856A87","first_name":"Carmen","last_name":"Streicher"},{"last_name":"Molnár","first_name":"Zoltán","full_name":"Molnár, Zoltán"},{"full_name":"Maini, Philip K.","first_name":"Philip K.","last_name":"Maini"},{"full_name":"Woolley, Thomas E.","first_name":"Thomas E.","last_name":"Woolley"}],"date_updated":"2023-08-29T07:19:39Z","date_created":"2019-09-02T11:57:28Z","volume":235,"year":"2019","publication_status":"published","department":[{"_id":"SiHi"}],"publisher":"Wiley","month":"09","publication_identifier":{"eissn":["1469-7580"],"issn":["0021-8782"]},"doi":"10.1111/joa.13001","language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)"},"oa":1,"external_id":{"isi":["000482426800017"]},"quality_controlled":"1","isi":1,"project":[{"_id":"260018B0-B435-11E9-9278-68D0E5697425","grant_number":"725780","name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development","call_identifier":"H2020"}],"abstract":[{"lang":"eng","text":"Studying the progression of the proliferative and differentiative patterns of neural stem cells at the individual cell level is crucial to the understanding of cortex development and how the disruption of such patterns can lead to malformations and neurodevelopmental diseases. However, our understanding of the precise lineage progression programme at single-cell resolution is still incomplete due to the technical variations in lineage- tracing approaches. One of the key challenges involves developing a robust theoretical framework in which we can integrate experimental observations and introduce correction factors to obtain a reliable and representative description of the temporal modulation of proliferation and differentiation. In order to obtain more conclusive insights, we carry out virtual clonal analysis using mathematical modelling and compare our results against experimental data. Using a dataset obtained with Mosaic Analysis with Double Markers, we illustrate how the theoretical description can be exploited to interpret and reconcile the disparity between virtual and experimental results."}],"issue":"3","type":"journal_article","file":[{"date_updated":"2020-07-14T12:47:42Z","date_created":"2019-09-02T12:05:18Z","checksum":"160f960844b204057f20896e0e1f8ee7","file_id":"6845","relation":"main_file","creator":"dernst","content_type":"application/pdf","file_size":1192994,"file_name":"2019_JournalAnatomy_Picco.pdf","access_level":"open_access"}],"oa_version":"Published Version","_id":"6844","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"A mathematical insight into cell labelling experiments for clonal analysis","status":"public","ddc":["570"],"intvolume":" 235","day":"01","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1","date_published":"2019-09-01T00:00:00Z","publication":"Journal of Anatomy","citation":{"short":"N. Picco, S. Hippenmeyer, J. Rodarte, C. Streicher, Z. Molnár, P.K. Maini, T.E. Woolley, Journal of Anatomy 235 (2019) 686–696.","mla":"Picco, Noemi, et al. “A Mathematical Insight into Cell Labelling Experiments for Clonal Analysis.” Journal of Anatomy, vol. 235, no. 3, Wiley, 2019, pp. 686–96, doi:10.1111/joa.13001.","chicago":"Picco, Noemi, Simon Hippenmeyer, Julio Rodarte, Carmen Streicher, Zoltán Molnár, Philip K. Maini, and Thomas E. Woolley. “A Mathematical Insight into Cell Labelling Experiments for Clonal Analysis.” Journal of Anatomy. Wiley, 2019. https://doi.org/10.1111/joa.13001.","ama":"Picco N, Hippenmeyer S, Rodarte J, et al. A mathematical insight into cell labelling experiments for clonal analysis. Journal of Anatomy. 2019;235(3):686-696. doi:10.1111/joa.13001","apa":"Picco, N., Hippenmeyer, S., Rodarte, J., Streicher, C., Molnár, Z., Maini, P. K., & Woolley, T. E. (2019). A mathematical insight into cell labelling experiments for clonal analysis. Journal of Anatomy. Wiley. https://doi.org/10.1111/joa.13001","ieee":"N. Picco et al., “A mathematical insight into cell labelling experiments for clonal analysis,” Journal of Anatomy, vol. 235, no. 3. Wiley, pp. 686–696, 2019.","ista":"Picco N, Hippenmeyer S, Rodarte J, Streicher C, Molnár Z, Maini PK, Woolley TE. 2019. A mathematical insight into cell labelling experiments for clonal analysis. Journal of Anatomy. 235(3), 686–696."},"article_type":"original","page":"686-696"},{"author":[{"last_name":"Sella","first_name":"Guy","full_name":"Sella, Guy"},{"full_name":"Barton, Nicholas H","first_name":"Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240"}],"date_updated":"2023-08-29T07:49:38Z","date_created":"2019-09-07T14:28:29Z","volume":20,"year":"2019","pmid":1,"publication_status":"published","department":[{"_id":"NiBa"}],"publisher":"Annual Reviews","file_date_updated":"2020-07-14T12:47:42Z","doi":"10.1146/annurev-genom-083115-022316","language":[{"iso":"eng"}],"external_id":{"isi":["000485148400020"],"pmid":["31283361"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"quality_controlled":"1","isi":1,"month":"07","publication_identifier":{"issn":["1527-8204"],"eissn":["1545-293X"]},"oa_version":"Published Version","file":[{"date_updated":"2020-07-14T12:47:42Z","date_created":"2019-09-09T07:22:12Z","checksum":"23d3978cf4739a89ce2c3e779f9305ca","relation":"main_file","file_id":"6862","content_type":"application/pdf","file_size":411491,"creator":"dernst","file_name":"2019_AnnualReview_Sella.pdf","access_level":"open_access"}],"_id":"6855","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","ddc":["576"],"title":"Thinking about the evolution of complex traits in the era of genome-wide association studies","status":"public","intvolume":" 20","abstract":[{"lang":"eng","text":"Many traits of interest are highly heritable and genetically complex, meaning that much of the variation they exhibit arises from differences at numerous loci in the genome. Complex traits and their evolution have been studied for more than a century, but only in the last decade have genome-wide association studies (GWASs) in humans begun to reveal their genetic basis. Here, we bring these threads of research together to ask how findings from GWASs can further our understanding of the processes that give rise to heritable variation in complex traits and of the genetic basis of complex trait evolution in response to changing selection pressures (i.e., of polygenic adaptation). Conversely, we ask how evolutionary thinking helps us to interpret findings from GWASs and informs related efforts of practical importance."}],"type":"journal_article","date_published":"2019-07-05T00:00:00Z","publication":"Annual Review of Genomics and Human Genetics","citation":{"ama":"Sella G, Barton NH. Thinking about the evolution of complex traits in the era of genome-wide association studies. Annual Review of Genomics and Human Genetics. 2019;20:461-493. doi:10.1146/annurev-genom-083115-022316","ieee":"G. Sella and N. H. Barton, “Thinking about the evolution of complex traits in the era of genome-wide association studies,” Annual Review of Genomics and Human Genetics, vol. 20. Annual Reviews, pp. 461–493, 2019.","apa":"Sella, G., & Barton, N. H. (2019). Thinking about the evolution of complex traits in the era of genome-wide association studies. Annual Review of Genomics and Human Genetics. Annual Reviews. https://doi.org/10.1146/annurev-genom-083115-022316","ista":"Sella G, Barton NH. 2019. Thinking about the evolution of complex traits in the era of genome-wide association studies. Annual Review of Genomics and Human Genetics. 20, 461–493.","short":"G. Sella, N.H. Barton, Annual Review of Genomics and Human Genetics 20 (2019) 461–493.","mla":"Sella, Guy, and Nicholas H. Barton. “Thinking about the Evolution of Complex Traits in the Era of Genome-Wide Association Studies.” Annual Review of Genomics and Human Genetics, vol. 20, Annual Reviews, 2019, pp. 461–93, doi:10.1146/annurev-genom-083115-022316.","chicago":"Sella, Guy, and Nicholas H Barton. “Thinking about the Evolution of Complex Traits in the Era of Genome-Wide Association Studies.” Annual Review of Genomics and Human Genetics. Annual Reviews, 2019. https://doi.org/10.1146/annurev-genom-083115-022316."},"page":"461-493","day":"05","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1"},{"type":"journal_article","issue":"6","abstract":[{"lang":"eng","text":"We discuss thermodynamic properties of harmonically trapped\r\nimperfect quantum gases. The spatial inhomogeneity of these systems imposes\r\na redefinition of the mean-field interparticle potential energy as compared\r\nto the homogeneous case. In our approach, it takes the form a\r\n2N2 ωd, where\r\nN is the number of particles, ω—the harmonic trap frequency, d—system’s\r\ndimensionality, and a is a parameter characterizing the interparticle interaction.\r\nWe provide arguments that this model corresponds to the limiting case of\r\na long-ranged interparticle potential of vanishingly small amplitude. This\r\nconclusion is drawn from a computation similar to the well-known Kac scaling\r\nprocedure, which is presented here in a form adapted to the case of an isotropic\r\nharmonic trap. We show that within the model, the imperfect gas of trapped\r\nrepulsive bosons undergoes the Bose–Einstein condensation provided d > 1.\r\nThe main result of our analysis is that in d = 1 the gas of attractive imperfect\r\nfermions with a = −aF < 0 is thermodynamically equivalent to the gas of\r\nrepulsive bosons with a = aB > 0 provided the parameters aF and aB fulfill\r\nthe relation aB + aF = \u001f. This result supplements similar recent conclusion\r\nabout thermodynamic equivalence of two-dimensional (2D) uniform imperfect\r\nrepulsive Bose and attractive Fermi gases."}],"_id":"6840","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 2019","status":"public","title":"Thermodynamics of inhomogeneous imperfect quantum gases in harmonic traps","oa_version":"Preprint","scopus_import":"1","article_processing_charge":"No","day":"13","citation":{"mla":"Mysliwy, Krzysztof, and Marek Napiórkowski. “Thermodynamics of Inhomogeneous Imperfect Quantum Gases in Harmonic Traps.” Journal of Statistical Mechanics: Theory and Experiment, vol. 2019, no. 6, 063101, IOP Publishing, 2019, doi:10.1088/1742-5468/ab190d.","short":"K. Mysliwy, M. Napiórkowski, Journal of Statistical Mechanics: Theory and Experiment 2019 (2019).","chicago":"Mysliwy, Krzysztof, and Marek Napiórkowski. “Thermodynamics of Inhomogeneous Imperfect Quantum Gases in Harmonic Traps.” Journal of Statistical Mechanics: Theory and Experiment. IOP Publishing, 2019. https://doi.org/10.1088/1742-5468/ab190d.","ama":"Mysliwy K, Napiórkowski M. Thermodynamics of inhomogeneous imperfect quantum gases in harmonic traps. Journal of Statistical Mechanics: Theory and Experiment. 2019;2019(6). doi:10.1088/1742-5468/ab190d","ista":"Mysliwy K, Napiórkowski M. 2019. Thermodynamics of inhomogeneous imperfect quantum gases in harmonic traps. Journal of Statistical Mechanics: Theory and Experiment. 2019(6), 063101.","apa":"Mysliwy, K., & Napiórkowski, M. (2019). Thermodynamics of inhomogeneous imperfect quantum gases in harmonic traps. Journal of Statistical Mechanics: Theory and Experiment. IOP Publishing. https://doi.org/10.1088/1742-5468/ab190d","ieee":"K. Mysliwy and M. Napiórkowski, “Thermodynamics of inhomogeneous imperfect quantum gases in harmonic traps,” Journal of Statistical Mechanics: Theory and Experiment, vol. 2019, no. 6. IOP Publishing, 2019."},"publication":"Journal of Statistical Mechanics: Theory and Experiment","date_published":"2019-06-13T00:00:00Z","article_number":"063101","ec_funded":1,"year":"2019","department":[{"_id":"RoSe"}],"publisher":"IOP Publishing","publication_status":"published","author":[{"full_name":"Mysliwy, Krzysztof","first_name":"Krzysztof","last_name":"Mysliwy","id":"316457FC-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Marek","last_name":"Napiórkowski","full_name":"Napiórkowski, Marek"}],"volume":2019,"date_updated":"2023-08-29T07:19:13Z","date_created":"2019-09-01T22:00:59Z","publication_identifier":{"eissn":["1742-5468"]},"month":"06","oa":1,"external_id":{"arxiv":["1810.02209"],"isi":["000471650100001"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1810.02209"}],"project":[{"name":"International IST Doctoral Program","call_identifier":"H2020","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"isi":1,"quality_controlled":"1","doi":"10.1088/1742-5468/ab190d","language":[{"iso":"eng"}]}]